| date | stage | club1 | club2 | goals | |
| 2016-06-28 | Qualifying_Round_1 | Partizani_Tirana(Albania) | Slovan_Bratislava(Slovakia) | 0 | 0 | - |
| 2016-06-28 | Qualifying_Round_1 | St.Patricks_Athletic(Ireland) | Jeunesse_dEsch(Luxembourg) | 1 | 0 | - |
| 2016-06-28 | Qualifying_Round_1 | Rabotnicki_Skopje(North_Macedonia) | Buducnost_Podgorica(Montenegro) | 1 | 1 | - |
| 2016-06-28 | Qualifying_Round_1 | Kapaz_Ganja(Azerbaijan) | Dacia_Chisinau(Moldova) | 0 | 0 | - |
| 2016-06-30 | Qualifying_Round_1 | FC_Midtjylland(Denmark) | Suduva_Marijampole(Lithuania) | 1 | 0 | - |
| 2016-06-30 | Qualifying_Round_1 | Hearts_FC(Scotland) | FCI_Tallinn(Estonia) | 2 | 1 | - |
| 2016-06-30 | Qualifying_Round_1 | Connahs_Quay(Wales) | Stabaek_IF(Norway) | 0 | 0 | - |
| 2016-06-30 | Qualifying_Round_1 | FK_Ventspils(Latvia) | Vikingur(Faroe Islands) | 2 | 0 | - |
| 2016-06-30 | Qualifying_Round_1 | Linfield_Belfast(Northern Ireland) | Cork_City(Ireland) | 0 | 1 | - |
| 2016-06-30 | Qualifying_Round_1 | Levadia_Tallinn(Estonia) | HB_Torshavn(Faroe Islands) | 1 | 1 | - |
| 2016-06-30 | Qualifying_Round_1 | Atlantas_Klaipeda(Lithuania) | HJK_Helsinki(Finland) | 0 | 2 | - |
| 2016-06-30 | Qualifying_Round_1 | IFK_Goteborg(Sweden) | Llandudno_FC(Wales) | 5 | 0 | - |
| 2016-06-30 | Qualifying_Round_1 | KR_Reykjavik(Iceland) | Glenavon(Northern Ireland) | 2 | 1 | - |
| 2016-06-30 | Qualifying_Round_1 | Shamrock_Rovers(Ireland) | RoPS_Rovaniemi(Finland) | 0 | 2 | - |
| 2016-06-30 | Qualifying_Round_1 | Valur_Reykjavik(Iceland) | Brondby_IF(Denmark) | 1 | 4 | - |
| 2016-06-30 | Qualifying_Round_1 | Aberdeen(Scotland) | CS_Fola_Esch(Luxembourg) | 3 | 1 | - |
| 2016-06-30 | Qualifying_Round_1 | FK_Trakai(Lithuania) | Kalju_Nomme(Estonia) | 2 | 1 | - |
| 2016-06-30 | Qualifying_Round_1 | Dinamo_Minsk(Belarus) | Spartaks_Jurmala(Latvia) | 2 | 1 | - |
| 2016-06-30 | Qualifying_Round_1 | Breidablik(Iceland) | FK_Jelgava(Latvia) | 2 | 3 | - |
| 2016-06-30 | Qualifying_Round_1 | NSI_Runavik(Faroe Islands) | Shakhtior_Saligorsk(Belarus) | 0 | 2 | - |
| 2016-06-30 | Qualifying_Round_1 | AIK_Stockholm(Sweden) | Bala_Town(Wales) | 2 | 0 | - |
| 2016-06-30 | Qualifying_Round_1 | Differdange_03(Luxembourg) | Cliftonville(Northern Ireland) | 1 | 1 | - |
| 2016-06-30 | Qualifying_Round_1 | Odd_Grenland(Norway) | IFK_Mariehamn(Finland) | 2 | 0 | - |
| 2016-06-30 | Qualifying_Round_1 | NK_Domzale(Slovenia) | FC_Lusitanos(Andorra) | 3 | 1 | - |
| 2016-06-30 | Qualifying_Round_1 | Bokelj_Kotor(Montenegro) | Vojvodina_Novi_Sad(Serbia) | 1 | 1 | - |
| 2016-06-30 | Qualifying_Round_1 | AEK_Larnaca(Cyprus) | Folgore(San-Marino) | 3 | 0 | - |
| 2016-06-30 | Qualifying_Round_1 | Dila_Gori(Georgia) | Shirak_Gyumri(Armenia) | 1 | 0 | - |
| 2016-06-30 | Qualifying_Round_1 | Videoton_Fehervar(Hungary) | Zarya_Balti(Moldova) | 3 | 0 | - |
| 2016-06-30 | Qualifying_Round_1 | La_Fiorita(San-Marino) | DVSC_Debrecen(Hungary) | 0 | 5 | - |
| 2016-06-30 | Qualifying_Round_1 | Balzan_FC(Malta) | Neftchi_Baku(Azerbaijan) | 0 | 2 | - |
| 2016-06-30 | Qualifying_Round_1 | Gabala_FK(Azerbaijan) | Samtredia(Georgia) | 5 | 1 | - |
| 2016-06-30 | Qualifying_Round_1 | Banants_Yerevan(Armenia) | Omonia_Nicosia(Cyprus) | 0 | 1 | - |
| 2016-06-30 | Qualifying_Round_1 | Zimbru_Chisinau(Moldova) | Chikhura_Sachkhere(Georgia) | 0 | 1 | - |
| 2016-06-30 | Qualifying_Round_1 | Europa_FC(Gibraltar) | Pyunik_Yerevan(Armenia) | 2 | 0 | - |
| 2016-06-30 | Qualifying_Round_1 | Maccabi_Tel-Aviv(Israel) | Nova_Gorica(Slovenia) | 3 | 0 | - |
| 2016-06-30 | Qualifying_Round_1 | Teuta_Durres(Albania) | Kairat_Almaty(Kazakhstan) | 0 | 1 | - |
| 2016-06-30 | Qualifying_Round_1 | FC_Beroe_Stara_Zagora(Bulgaria) | Radnik_Bijeljina(Bosnia-Herzegovina) | 0 | 0 | - |
| 2016-06-30 | Qualifying_Round_1 | FK_Kukesi(Albania) | Rudar_Pljevlja(Montenegro) | 1 | 1 | - |
| 2016-06-30 | Qualifying_Round_1 | Siroki_Brijeg(Bosnia-Herzegovina) | Birkirkara(Malta) | 1 | 1 | - |
| 2016-06-30 | Qualifying_Round_1 | Slavia_Sofia(Bulgaria) | Zaglebie_Lubin(Poland) | 1 | 0 | - |
| 2016-06-30 | Qualifying_Round_1 | Shkendija_Tetovo(North_Macedonia) | Cracovia_Krakow(Poland) | 2 | 0 | - |
| 2016-06-30 | Qualifying_Round_1 | UE_Santa_Coloma(Andorra) | Lokomotiva_Zagreb(Croatia) | 1 | 3 | - |
| 2016-06-30 | Qualifying_Round_1 | FC_Vaduz(Liechtenstein) | Sileks_Kratovo(North_Macedonia) | 3 | 1 | - |
| 2016-06-30 | Qualifying_Round_1 | Spartak_Trnava(Slovakia) | Hibernians_FC(Malta) | 3 | 0 | - |
| 2016-06-30 | Qualifying_Round_1 | Sloboda_Tuzla(Bosnia-Herzegovina) | Beitar_Jerusalem(Israel) | 0 | 0 | - |
| 2016-06-30 | Qualifying_Round_1 | Cukaricki_Belgrade(Serbia) | Ordabasy_Shymkent(Kazakhstan) | 3 | 0 | - |
| 2016-06-30 | Qualifying_Round_1 | Admira_Wacker(Austria) | Spartak_Myjava(Slovakia) | 1 | 1 | - |
| 2016-06-30 | Qualifying_Round_1 | FK_Aktobe(Kazakhstan) | MTK_Budapest(Hungary) | 1 | 1 | - |
| 2016-07-05 | Qualifying_Round_1 | Jeunesse_dEsch(Luxembourg) | St.Patricks_Athletic(Ireland) | 2 | 1 | - |
| 2016-07-05 | Qualifying_Round_1 | Chikhura_Sachkhere(Georgia) | Zimbru_Chisinau(Moldova) | 2 | 3 | - |
| 2016-07-05 | Qualifying_Round_1 | Birkirkara(Malta) | Siroki_Brijeg(Bosnia-Herzegovina) | 2 | 0 | - |
| 2016-07-06 | Qualifying_Round_1 | FCI_Tallinn(Estonia) | Hearts_FC(Scotland) | 2 | 4 | - |
| 2016-07-07 | Qualifying_Round_1 | Suduva_Marijampole(Lithuania) | FC_Midtjylland(Denmark) | 0 | 1 | - |
| 2016-07-07 | Qualifying_Round_1 | Stabaek_IF(Norway) | Connahs_Quay(Wales) | 0 | 1 | - |
| 2016-07-07 | Qualifying_Round_1 | Vikingur(Faroe Islands) | FK_Ventspils(Latvia) | 0 | 2 | - |
| 2016-07-07 | Qualifying_Round_1 | Cork_City(Ireland) | Linfield_Belfast(Northern Ireland) | 1 | 1 | - |
| 2016-07-07 | Qualifying_Round_1 | HB_Torshavn(Faroe Islands) | Levadia_Tallinn(Estonia) | 0 | 2 | - |
| 2016-07-07 | Qualifying_Round_1 | HJK_Helsinki(Finland) | Atlantas_Klaipeda(Lithuania) | 1 | 1 | - |
| 2016-07-07 | Qualifying_Round_1 | Llandudno_FC(Wales) | IFK_Goteborg(Sweden) | 1 | 2 | - |
| 2016-07-07 | Qualifying_Round_1 | Glenavon(Northern Ireland) | KR_Reykjavik(Iceland) | 0 | 6 | - |
| 2016-07-07 | Qualifying_Round_1 | RoPS_Rovaniemi(Finland) | Shamrock_Rovers(Ireland) | 1 | 1 | - |
| 2016-07-07 | Qualifying_Round_1 | Brondby_IF(Denmark) | Valur_Reykjavik(Iceland) | 6 | 0 | - |
| 2016-07-07 | Qualifying_Round_1 | CS_Fola_Esch(Luxembourg) | Aberdeen(Scotland) | 1 | 0 | - |
| 2016-07-07 | Qualifying_Round_1 | Kalju_Nomme(Estonia) | FK_Trakai(Lithuania) | 4 | 1 | - |
| 2016-07-07 | Qualifying_Round_1 | Spartaks_Jurmala(Latvia) | Dinamo_Minsk(Belarus) | 0 | 2 | - |
| 2016-07-07 | Qualifying_Round_1 | FK_Jelgava(Latvia) | Breidablik(Iceland) | 2 | 2 | - |
| 2016-07-07 | Qualifying_Round_1 | Shakhtior_Saligorsk(Belarus) | NSI_Runavik(Faroe Islands) | 5 | 0 | - |
| 2016-07-07 | Qualifying_Round_1 | Bala_Town(Wales) | AIK_Stockholm(Sweden) | 0 | 2 | - |
| 2016-07-07 | Qualifying_Round_1 | Cliftonville(Northern Ireland) | Differdange_03(Luxembourg) | 2 | 0 | - |
| 2016-07-07 | Qualifying_Round_1 | IFK_Mariehamn(Finland) | Odd_Grenland(Norway) | 1 | 1 | - |
| 2016-07-07 | Qualifying_Round_1 | FC_Lusitanos(Andorra) | NK_Domzale(Slovenia) | 1 | 2 | - |